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Table 1  A summary of LD observed among marker pairs and the number of significant marker pairs per genome and chromosome

From: Genome-wide association mapping and genomic prediction of agronomical traits and breeding values in Iranian wheat under rain-fed and well-watered conditions

Chromosome

Total

Landrace

Cultivar

TNSP

r 2

Dis. (cM)

NSSP

TNSP

r 2

Dis. (cM)

NSSP

TNSP

r 2

Dis. (cM)

NSSP

1 A

111,575

0.111829

1.333712

49,917 (44.74%)

94,575

0.116906

1.568634

34,895 (36.9%)

85,625

0.148069

1.736676

27,111 (31.66%)

2 A

137,150

0.251605

0.856962

79,772 (58.16%)

125,450

0.289098

0.936772

68,972 (54.98%)

119,450

0.288518

0.972951

57,769 (48.36%)

3 A

96,450

0.130453

2.27878

44,914 (46.57%)

74,950

0.134097

2.933748

28,787 (38.41%)

85,000

0.15728

2.574908

25,912 (30.48%)

4 A

130,500

0.317779

1.378513

79,428 (60.86%)

110,850

0.369392

1.594492

66,016 (59.55%)

116,700

0.36745

1.50704

58,086 (49.77%)

5 A

71,850

0.132927

2.005721

32,488 (45.22%)

60,100

0.146486

2.402626

24,483 (40.74%)

60,600

0.166755

2.38547

18,725 (30.9%)

6 A

99,050

0.158856

1.296073

52,549 (53.05%)

85,850

0.178539

1.498357

40,739 (47.45%)

86,550

0.178744

1.486057

29,651 (34.26%)

7 A

149,700

0.193545

1.164988

78,616 (52.52%)

128,550

0.211862

1.358487

64,114 (49.87%)

129,900

0.232161

1.343972

49,454 (38.07%)

1B

150,800

0.154279

0.932852

80,419 (53.33%)

135,600

0.154625

1.035051

64,442 (47.52%)

132,400

0.20421

1.063407

49,705 (37.54%)

2B

187,300

0.156885

0.764253

102,236 (54.58%)

157,350

0.176011

0.910909

79,057 (50.24%)

166,950

0.19665

0.858127

66,140 (39.62%)

3B

201,700

0.210733

0.771726

119,399 (59.2%)

173,200

0.220043

0.89872

90,266 (52.12%)

177,550

0.243607

0.876084

78,180 (44.03%)

4B

60,050

0.115027

2.20477

23,537 (39.2%)

44,800

0.09777

2.968273

12,423 (27.73%)

52,600

0.142347

2.516753

13,477 (25.62%)

5B

152,400

0.15014

1.292476

80,669 (52.93%)

136,300

0.14202

1.445522

57,252 (42%)

135,650

0.202818

1.431617

55,651 (41.03%)

6B

190,850

0.13708

0.658245

99,314 (52.04%)

167,500

0.135522

0.750676

71,975 (42.97%)

159,700

0.203568

0.787671

66,038 (41.35%)

7B

150,100

0.121987

0.987127

70,107 (46.71%)

127,550

0.12878

1.153868

51,602 (40.46%)

134,150

0.155388

1.102364

41,168 (30.69%)

1D

48,650

0.238268

3.477302

26,009 (53.46%)

42,500

0.226198

3.808863

20,075 (47.24%)

38,350

0.285881

4.409069

16,564 (43.19%)

2D

69,550

0.183692

1.586178

31,547 (45.36%)

55,400

0.163933

1.999469

21,117 (38.12%)

49,600

0.228564

2.23156

16,357 (32.98%)

3D

37,050

0.116765

4.639072

5460 (14.74%)

31,800

0.165445

5.245984

11,619 (36.54%)

26,800

0.137566

6.273779

5458 (20.37%)

4D

13,500

0.122822

9.104484

4560 (33.78%)

11,800

0.130958

10.56137

3577 (30.31%)

11,550

0.154924

10.56621

2312 (20.02%)

5D

31,750

0.130873

6.894582

12,308 (38.77%)

26,250

0.134737

8.311197

9238 (35.19%)

23,700

0.147915

9.317761

5518 (23.28%)

6D

38,300

0.123729

4.134238

15,652 (40.87%)

34,900

0.136001

4.545476

12,619 (36.16%)

29,750

0.137805

5.369092

6852 (23.03%)

7D

46,700

0.150286

4.409549

17,838 (38.2%)

42,300

0.147515

4.882439

14,457 (34.18%)

35,850

0.201644

5.778975

10,863 (30.3%)

A genome

796,275

0.195029

1.397647

417,684 (52.45%)

680,325

0.220024

1.631824

328,006 (48.21%)

683,825

0.232699

1.61945

266,708 (39%)

B genome

1,093,200

0.154972

0.95375

575,681 (52.66%)

942,300

0.1588

1.106081

427,017 (45.32%)

959,000

0.199661

1.084318

370,359 (38.62%)

D genome

285,500

0.162046

4.054108

113,374 (39.71%)

244,950

0.1634

4.684331

92,702 (37.85%)

215,600

0.197637

5.369609

63,924 (29.65%)

Whole genomes

2,174,975

0.170566

1.523235

1,106,739 (50.89%)

1,867,575

0.181706

1.766921

847,725 (45.39%)

1,858,425

0.211583

1.778371

700,991 (37.72%)

  1. Abbreviations: r2 average squared allele frequency correlation, TNSP Total number of SNP pairs, NSSP Number of significant SNP pairs (P < 0.001), Dis Distance
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